TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1881c/lppE:

update plot	correlation	link to info on gene
Rv2355/-	(cc=0.4696)	info on Rv2355/-
Rv2116/lppK	(cc=0.4552)	info on Rv2116/lppK
Rv0755A/-	(cc=0.4444)	info on Rv0755A/-
Rv0148/-	(cc=0.4348)	info on Rv0148/-
Rv1424c/-	(cc=0.4301)	info on Rv1424c/-
Rv3116/moeB2	(cc=0.4205)	info on Rv3116/moeB2
Rv1984c/cfp21	(cc=0.412)	info on Rv1984c/cfp21
Rv1917c/PPE34	(cc=0.4107)	info on Rv1917c/PPE34
Rv2649/-	(cc=0.4094)	info on Rv2649/-
Rv0796/-	(cc=0.399)	info on Rv0796/-

Correlation of Rv1881c/lppE with Rv1424c/-

Normalized LFCs for Rv1881c/lppE:
(description and provenance of datasets)

	Rv1881c/lppE	Rv1424c/-
Fe_supp_jason_reseq	0.23	0.554
low_pH_jason_reseq	-0.739	0.035
NO_jason_reseq	0.0	0.108
B6_jason_reseq	0.018	0.256
MHCII_jason_reseq	0.528	0.154
Isoniazid02	0.298	0.226
Rifampicin4	0.593	0.726
Ethambutol3	-0.058	0.039
Meropenem3	-0.025	0.255
Vancomycin16	0.708	0.602
Rv2680_day32	0.253	-0.576
H37Rv_KO_MarP	-0.24	-0.044
hypoxia_3wks	-0.116	-0.722
hypoxia_6wks	0.271	0.777
glycerol	-1.024	-0.434
cholesterol	-1.087	-0.054
AJ	0.109	0.413
Bibs02	-0.056	0.128
Bibs02c	0.671	0.373
BL6	0.769	-0.111
BL6a	0.73	0.528
BXD01	0.08	-0.36
BXD010	0.309	0.594
BXD011	0.105	0.784
BXD03	-0.148	-0.231
BXD04	0.089	0.073
BXD05	-0.165	0.281
BXD06	-0.076	0.168
BXD07	0.099	-0.051
BXD08	0.176	0.574
BXD09	-0.154	0.375
CAST	0.058	0.055
CCcont	-0.279	-0.389
DS01	0.666	0.084
DS02	1.134	-0.027
DS04	0.795	0.915
DS0c	0.709	0.883
GP01	0.461	0.641
GP02	0.737	1.001
GP0c	0.615	0.672
NOD	0.441	0.054
NZO	0.397	0.532
PWK	-0.175	0.31
H37Rv_KO_CtpC	-0.362	0.753
H37Rv_KO_CtpD	0.037	0.728
H37Rv_KO_Rv1272	0.061	1.669
H37Rv_KO_SugABC	0.365	1.084
H37Rv_KO_MbtN	0.737	0.682
Trans05	0.423	0.714
macrophage_unactivated	0.032	0.0
IL1	-0.03	-0.629
Rapamycin	-0.19	0.531
Tcell	-0.202	-0.355
GMCSF	0.702	0.169
IFNab	-0.091	-0.46
IFNg	0.094	1.066
IFNg_GMCSF1	0.094	0.0
Rv1432_day32	-0.536	1.701
Rv1565c_day32	0.54	0.782
secA2_input	0.097	1.071
delta_Rv3594	0.09	0.408
delta_Rv3717	-0.395	0.239
delta_Rv3811	0.364	0.253
delta_Rv0954	0.455	0.27
PonA1	0.102	0.173
EccD1_KO	0.016	0.395
EspI_KO	0.374	1.184
PE35_KO	-0.114	1.345
PPE68_KO	0.035	1.123
glycerol2	-0.083	-0.789
lignocerate	-0.626	-0.66
oleate	0.318	-0.196
phosphatidylcholine	-0.088	-0.508
acetate	-0.504	-1.122
glucAc	-0.442	-0.931
Rv0950ko	-0.38	-0.703
Rv1096ko	-0.992	-0.703
Rv3684ko	-1.205	-0.963
delta_otsA_trehalose	-1.649	-0.303